Genomic Imprinting Absent in Drosophila melanogaster Adult Females
Genomic Imprinting Absent in Drosophila melanogaster Adult Females
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DOI：
10.1016/j.celrep.2012.06.013
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发表时间：
2012-07-01
期刊：
影响因子：
8.8
通讯作者：
Wittkopp, Patricia J.
中科院分区：
文献类型：
--
作者：
Coolon, Joseph D.;Stevenson, Kraig R.;Wittkopp, Patricia J.
当等位基因的表达基于传播等位基因的父母的性别而异时，基因组印迹就会发生。在D. melanogaster中，可能会发生印迹，但其对等位基因表达全基因组的影响尚不清楚。在这里，我们使用RNA-Seq在D. melanogaster中搜索了印迹基因，以比较来自相互杂交的7至10天大成年雌性后代的池之间的等位基因特异性表达。我们确定了119个与印迹一致的等位基因表达的基因，这些基因在基因组中显示出明显的聚类。令人惊讶的是，对这些基因中的几个基因的其他分析表明，基因组异质性或高水平的内在噪声引起了印迹样等位基因表达。因此，我们的数据没有提供令人信服的证据，表明在其本地基因组环境中，梅拉诺加斯特基因的印迹。鉴于此方法越来越流行，阐明在等位基因特异性的RNA-seq数据中阐明假阳性信号的来源至关重要。
Genomic imprinting occurs when expression of an allele differs based on the sex of the parent that transmitted the allele. In D. melanogaster, imprinting can occur, but its impact on allelic expression genome-wide is unclear. Here, we search for imprinted genes in D. melanogaster using RNA-seq to compare allele-specific expression between pools of 7- to 10-day-old adult female progeny from reciprocal crosses. We identified 119 genes with allelic expression consistent with imprinting, and these genes showed significant clustering within the genome. Surprisingly, additional analysis of several of these genes showed that either genomic heterogeneity or high levels of intrinsic noise caused imprinting-like allelic expression. Consequently, our data provide no convincing evidence of imprinting for D. melanogaster genes in their native genomic context. Elucidating sources of false-positive signals for imprinting in allele-specific RNA-seq data, as done here, is critical given the growing popularity of this method for identifying imprinted genes.